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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcaagtcatgttcttatcttgttgcattctactcttctgtttcatgtaaactctggtggttatatatatgacttgtctacttgagtataaatcagGAACAAGGTCTTGACATGATCTCCGAAGGGTTAGATGCTTTGAAGAACATGGCTTCTGATATGAACGAG

Basic information

species Arabidopsis thaliana
transcript AT3G09740.1
intron # 4
splice site 3'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|86081762|gb|DR377521.1|DR377521
EST:     ATGAATCTAGCCAATTCAGGCAGGAGTATGAGATGCGGAAAATAAAACAG                         GAACAAGGTCTTGACATGATCTCCGAAGGGTTAGATGCTTTGAAGAACATG
genomic: ATGAATCTAGCCAATTCAGGCAGGAGTATGAGATGCGGAAAATAAAACAGgcaagtcatg ... tataaatcagGAACAAGGTCTTGACATGATCTCCGAAGGGTTAGATGCTTTGAAGAACATG
EST: gi|116431994|gb|EG474586.1|EG474586
EST:     ATGAATCTAGCCAATTCAGGCAGGAGTATGAGATGCGGAAAATAAAACAG                         GAACAAGGTCTTGACATGATCTCCGAAGGGTTAGATGCTTTGAAGAACATG
genomic: ATGAATCTAGCCAATTCAGGCAGGAGTATGAGATGCGGAAAATAAAACAGgcaagtcatg ... tataaatcagGAACAAGGTCTTGACATGATCTCCGAAGGGTTAGATGCTTTGAAGAACATG
EST: gi|116435937|gb|EG478529.1|EG478529
EST:     ATGAATCTAGCCAATTCAGGCAGGAGTATGAGATGCGGAAAATAAAACAG                         GAACAAGGTCTTGACATGATCTCCGAAGGGTTAGATGCTTTGAAGAACATG
genomic: ATGAATCTAGCCAATTCAGGCAGGAGTATGAGATGCGGAAAATAAAACAGgcaagtcatg ... tataaatcagGAACAAGGTCTTGACATGATCTCCGAAGGGTTAGATGCTTTGAAGAACATG
EST: gi|124924872|gb|EL002926.1|EL002926
EST:     TTCAGGCAGGAGTATGAGATGCGGAAAATAAAACAG                         GAACAAGGTCTTGACATGATCTCCGAAGGGTTAGATGCTT
genomic: TTCAGGCAGGAGTATGAGATGCGGAAAATAAAACAGgcaagtcatg ... tataaatcagGAACAAGGTCTTGACATGATCTCCGAAGGGTTAGATGCTT
EST: gi|163978838|gb|EL991144.1|EL991144
EST:     ATGAATCTAGCCAATTCAGGCAGGAGTATGAGATGCGGAAAATAAAACAG                         GAACAAGGTCTTGACATGATCTCCGAAGGGTTAGATGCTTTGAAGAAC
genomic: ATGAATCTAGCCAATTCAGGCAGGAGTATGAGATGCGGAAAATAAAACAGgcaagtcatg ... tataaatcagGAACAAGGTCTTGACATGATCTCCGAAGGGTTAGATGCTTTGAAGAAC
EST: gi|125308961|gb|EL323046.1|EL323046
EST:     ATGAATCTAGCCAATTCAGGCAGGAGTATGAGATGCGGAAAATAAAACAG                         GAACAAGGTCTTGACATGATCTCCGAAGGGTTAG
genomic: ATGAATCTAGCCAATTCAGGCAGGAGTATGAGATGCGGAAAATAAAACAGgcaagtcatg ... tataaatcagGAACAAGGTCTTGACATGATCTCCGAAGGGTTAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcatgtaaactctggtggttatatatatgacttgtctacttgagtataaatcagGAACAAGGTCTTGACATGATCTCCGAAGGGTTAGATGCTTTGAAGAACATGGCTTCTGATATGAACGAG
                   ttatatatatgactt  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcaagtcatgttcttatcttgttgcattctactcttctgtttcatgtaaactctggtggttatatatatgacttgtctacttgagtataaatcagGAACAAGGTCTTGACATGATCTCCGAAGGGTTAGATGCTTTGAAGAACATGGCTTCTGATATGAACGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC